status: PUBLIC

characteristic: External Id

text: Mycobacteriology, National Institute of Infectious Diseases

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: MIGS.ba

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Keywords: GSC:MIxS;MIGS:6.0

characteristic: description

text: Homo sapiens

tag: attribute

characteristic: host

text: individual isolate

characteristic: isolate

text: Mycobacteroides abscessus subsp. massiliense

characteristic: organism

text: Development of a novel DNA chromatography discriminating of Mycobacterium abscessus subspecies and macrolide susceptibility.

characteristic: project name

characteristic: sample name

characteristic: strain

text: massiliense

characteristic: sub species

text: clinical isolate of Mycobacteroides abscessus complex, MabLRC73

characteristic: title


characteristic: External Id

characteristic: INSDC center name

text: live

text: MIGS.ba

text: Keywords: GSC:MIxS;MIGS:6.0

text: Homo sapiens

text: individual isolate

text: massiliense

text: clinical isolate of Mycobacteroides abscessus complex, MabLRC74


text: unidentified

characteristic: ArrayExpress-SPECIES

characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: SC

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: unidentified

characteristic: common name

text: unidentified

text: unidentified


text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Sahlgrenska Academy, Gothenburg University

text: ArrayExpress

characteristic: broker name

text: human

text: Protocols: DNAse treated total RNA samples dissolved in nuclease free water Promega Total RNA Isolation Kit Eukaryotic Transcriptome Library

characteristic: description

text: non-small cell lung carcinoma

characteristic: disease

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

text: Homo sapiens


text: Sahlgrenska Academy, Gothenburg University

text: public

text: ArrayExpress

text: human

text: non-small cell lung carcinoma

text: not applicable

characteristic: isolate

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

text: Homo sapiens


E-MTAB-12338:Brominated compounds 1

text: public

text: E-MTAB-12338:Brominated compounds 1

tag: Namespace:Department of Biological Sciences University of Bergen, Bergen, Norway

text: Norwegian coastal

characteristic: breed

text: ArrayExpress

text: Atlantic cod

text: Protocols: Juvenile male Atlantic cod from a strain of Norwegian coastal cod were used in this experiment. Farmed cod with mean weight 0.84±0.18 kg was transferred to 20 m3 indoor tanks prior to the start of the exposure experiment. Indoor light followed the natural diurnal rhythm for Bergen (64°N). The fish tanks were supplied with seawater at 8.8-9.5°. The fish were fed once per week (by tube-feeding) feed pellets with vehicle (control), chlorinated compounds (PCBs, DDTs chlordane, lindane and toxaphene), Brominated compounds (PBDE), fluorinated compunds (PFOS) and mixture of the chlorinated, brominated and fluorinated compounds, as detailed in Bratberg et al., 2013. Tissue sampling was conducted one week after the administration of the final dose. The cod were anaesthetized with metomidate hydrochloride and killed by a blow to the head. Liver samples were rapidly excised, snap frozen in liquid nitrogen and stored at -80°C before further processing. Liver tissue was homogenized with a Precellys 24 homogenizer (Bertin Technologies, Montigny-le-Bretonneux, France). Total RNA was extracted using the BioRobot EZ1 and RNA Tissue Mini Kit (Qiagen, Hilden, Germany) and treated with DNase. The RNA 6000 Nano LabChip kit (Agilent Technologies, Palo Alto, CA, USA) was used to evaluate the RNA integrity of the samples. The RNA integrity number (RIN) was 9.9 ± 0.2 (mean ± st.dev., n=47). Illumina HiSeq 4000 system

text: juvenile stage

characteristic: developmental stage

text: normal

text: wild type genotype

characteristic: genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

characteristic: sex

text: Brominated compounds 1

characteristic: title


E-MTAB-12338:Brominated compounds 10

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

text: Department of Biological Sciences University of Bergen, Bergen, Norway

characteristic: INSDC center name

text: public

text: E-MTAB-12338:Brominated compounds 10

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Brominated compounds 10


E-MTAB-12338:Brominated compounds 2

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-12338:Brominated compounds 2

characteristic: Submitter Id

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

characteristic: common name

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Brominated compounds 2


E-MTAB-12338:Brominated compounds 3

text: public

characteristic: SRA accession

text: E-MTAB-12338:Brominated compounds 3

text: Norwegian coastal

text: ArrayExpress

characteristic: broker name

text: Atlantic cod

characteristic: description

text: juvenile stage

text: normal

characteristic: disease

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Brominated compounds 3


E-MTAB-12338:Brominated compounds 4

text: public

text: E-MTAB-12338:Brominated compounds 4

text: Norwegian coastal

characteristic: breed

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

characteristic: isolate

text: Gadus morhua

characteristic: organism

text: Gadus morhua

text: liver

characteristic: organism part

text: Gadus morhua

text: male

text: Brominated compounds 4


E-MTAB-12338:Brominated compounds 5

text: public

text: E-MTAB-12338:Brominated compounds 5

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

characteristic: developmental stage

text: normal

text: wild type genotype

characteristic: genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

characteristic: sex

text: Brominated compounds 5

characteristic: title


E-MTAB-12338:Brominated compounds 6

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-12338:Brominated compounds 6

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Brominated compounds 6


E-MTAB-12338:Brominated compounds 7

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-12338:Brominated compounds 7

characteristic: Submitter Id

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

characteristic: common name

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Brominated compounds 7


E-MTAB-12338:Brominated compounds 8

text: public

characteristic: SRA accession

text: E-MTAB-12338:Brominated compounds 8

text: Norwegian coastal

text: ArrayExpress

characteristic: broker name

text: Atlantic cod

characteristic: description

text: juvenile stage

text: normal

characteristic: disease

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Brominated compounds 8


E-MTAB-12338:Brominated compounds 9

text: public

text: E-MTAB-12338:Brominated compounds 9

text: Norwegian coastal

characteristic: breed

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

characteristic: isolate

text: Gadus morhua

characteristic: organism

text: Gadus morhua

text: liver

characteristic: organism part

text: Gadus morhua

text: male

text: Brominated compounds 9


E-MTAB-12338:Chlorinated compounds 1

text: public

text: E-MTAB-12338:Chlorinated compounds 1

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

characteristic: developmental stage

text: normal

text: wild type genotype

characteristic: genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

characteristic: sex

text: Chlorinated compounds 1

characteristic: title


E-MTAB-12338:Chlorinated compounds 2

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-12338:Chlorinated compounds 2

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Chlorinated compounds 2


E-MTAB-12338:Chlorinated compounds 3

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-12338:Chlorinated compounds 3

characteristic: Submitter Id

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

characteristic: common name

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Chlorinated compounds 3


E-MTAB-12338:Chlorinated compounds 4

text: public

characteristic: SRA accession

text: E-MTAB-12338:Chlorinated compounds 4

text: Norwegian coastal

text: ArrayExpress

characteristic: broker name

text: Atlantic cod

characteristic: description

text: juvenile stage

text: normal

characteristic: disease

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Chlorinated compounds 4


E-MTAB-12338:Chlorinated compounds 5

text: public

text: E-MTAB-12338:Chlorinated compounds 5

text: Norwegian coastal

characteristic: breed

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

characteristic: isolate

text: Gadus morhua

characteristic: organism

text: Gadus morhua

text: liver

characteristic: organism part

text: Gadus morhua

text: male

text: Chlorinated compounds 5


E-MTAB-12338:Chlorinated compounds 6

text: public

text: E-MTAB-12338:Chlorinated compounds 6

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

characteristic: developmental stage

text: normal

text: wild type genotype

characteristic: genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

characteristic: sex

text: Chlorinated compounds 6

characteristic: title


E-MTAB-12338:Chlorinated compounds 7

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-12338:Chlorinated compounds 7

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Chlorinated compounds 7


E-MTAB-12338:Chlorinated compounds 8

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-12338:Chlorinated compounds 8

characteristic: Submitter Id

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

characteristic: common name

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Chlorinated compounds 8


E-MTAB-12338:Control 1

text: public

characteristic: SRA accession

text: E-MTAB-12338:Control 1

text: Norwegian coastal

text: ArrayExpress

characteristic: broker name

text: Atlantic cod

characteristic: description

text: juvenile stage

text: normal

characteristic: disease

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Control 1


E-MTAB-12338:Control 10

text: public

text: E-MTAB-12338:Control 10

text: Norwegian coastal

characteristic: breed

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

characteristic: isolate

text: Gadus morhua

characteristic: organism

text: Gadus morhua

text: liver

characteristic: organism part

text: Gadus morhua

text: male

text: Control 10


E-MTAB-12338:Control 2

text: public

text: E-MTAB-12338:Control 2

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

characteristic: developmental stage

text: normal

text: wild type genotype

characteristic: genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

characteristic: sex

text: Control 2

characteristic: title


E-MTAB-12338:Control 3

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-12338:Control 3

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Control 3


E-MTAB-12338:Control 4

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-12338:Control 4

characteristic: Submitter Id

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

characteristic: common name

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Control 4


E-MTAB-12338:Control 5

text: public

characteristic: SRA accession

text: E-MTAB-12338:Control 5

text: Norwegian coastal

text: ArrayExpress

characteristic: broker name

text: Atlantic cod

characteristic: description

text: juvenile stage

text: normal

characteristic: disease

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Control 5


E-MTAB-12338:Control 6

text: public

text: E-MTAB-12338:Control 6

text: Norwegian coastal

characteristic: breed

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

characteristic: isolate

text: Gadus morhua

characteristic: organism

text: Gadus morhua

text: liver

characteristic: organism part

text: Gadus morhua

text: male

text: Control 6


E-MTAB-12338:Control 7

text: public

text: E-MTAB-12338:Control 7

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

characteristic: developmental stage

text: normal

text: wild type genotype

characteristic: genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

characteristic: sex

text: Control 7

characteristic: title


E-MTAB-12338:Control 8

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-12338:Control 8

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Control 8


E-MTAB-12338:Control 9

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-12338:Control 9

characteristic: Submitter Id

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

characteristic: common name

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Control 9


E-MTAB-12338:Fluorinated compounds 1

text: public

characteristic: SRA accession

text: E-MTAB-12338:Fluorinated compounds 1

text: Norwegian coastal

text: ArrayExpress

characteristic: broker name

text: Atlantic cod

characteristic: description

text: juvenile stage

text: normal

characteristic: disease

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Fluorinated compounds 1


E-MTAB-12338:Fluorinated compounds 10

text: public

text: E-MTAB-12338:Fluorinated compounds 10

text: Norwegian coastal

characteristic: breed

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

characteristic: isolate

text: Gadus morhua

characteristic: organism

text: Gadus morhua

text: liver

characteristic: organism part

text: Gadus morhua

text: male

text: Fluorinated compounds 10


E-MTAB-12338:Fluorinated compounds 2

text: public

text: E-MTAB-12338:Fluorinated compounds 2

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

characteristic: developmental stage

text: normal

text: wild type genotype

characteristic: genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

characteristic: sex

text: Fluorinated compounds 2

characteristic: title


E-MTAB-12338:Fluorinated compounds 3

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-12338:Fluorinated compounds 3

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Fluorinated compounds 3


E-MTAB-12338:Fluorinated compounds 4

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-12338:Fluorinated compounds 4

characteristic: Submitter Id

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

characteristic: common name

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Fluorinated compounds 4


E-MTAB-12338:Fluorinated compounds 5

text: public

characteristic: SRA accession

text: E-MTAB-12338:Fluorinated compounds 5

text: Norwegian coastal

text: ArrayExpress

characteristic: broker name

text: Atlantic cod

characteristic: description

text: juvenile stage

text: normal

characteristic: disease

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Fluorinated compounds 5


E-MTAB-12338:Fluorinated compounds 6

text: public

text: E-MTAB-12338:Fluorinated compounds 6

text: Norwegian coastal

characteristic: breed

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

characteristic: isolate

text: Gadus morhua

characteristic: organism

text: Gadus morhua

text: liver

characteristic: organism part

text: Gadus morhua

text: male

text: Fluorinated compounds 6


E-MTAB-12338:Fluorinated compounds 7

text: public

text: E-MTAB-12338:Fluorinated compounds 7

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

characteristic: developmental stage

text: normal

text: wild type genotype

characteristic: genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

characteristic: sex

text: Fluorinated compounds 7

characteristic: title


E-MTAB-12338:Fluorinated compounds 8

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-12338:Fluorinated compounds 8

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Fluorinated compounds 8


E-MTAB-12338:Fluorinated compounds 9

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-12338:Fluorinated compounds 9

characteristic: Submitter Id

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

characteristic: common name

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Fluorinated compounds 9


E-MTAB-12338:Mixture 1

text: public

characteristic: SRA accession

text: E-MTAB-12338:Mixture 1

text: Norwegian coastal

text: ArrayExpress

characteristic: broker name

text: Atlantic cod

characteristic: description

text: juvenile stage

text: normal

characteristic: disease

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Mixture 1


E-MTAB-12338:Mixture 2

text: public

text: E-MTAB-12338:Mixture 2

text: Norwegian coastal

characteristic: breed

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

characteristic: isolate

text: Gadus morhua

characteristic: organism

text: Gadus morhua

text: liver

characteristic: organism part

text: Gadus morhua

text: male

text: Mixture 2


E-MTAB-12338:Mixture 3

text: public

text: E-MTAB-12338:Mixture 3

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

characteristic: developmental stage

text: normal

text: wild type genotype

characteristic: genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

characteristic: sex

text: Mixture 3

characteristic: title


E-MTAB-12338:Mixture 4

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-12338:Mixture 4

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Mixture 4


E-MTAB-12338:Mixture 5

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-12338:Mixture 5

characteristic: Submitter Id

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

characteristic: common name

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Mixture 5


E-MTAB-12338:Mixture 6

text: public

characteristic: SRA accession

text: E-MTAB-12338:Mixture 6

text: Norwegian coastal

text: ArrayExpress

characteristic: broker name

text: Atlantic cod

characteristic: description

text: juvenile stage

text: normal

characteristic: disease

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Mixture 6


E-MTAB-12338:Mixture 7

text: public

text: E-MTAB-12338:Mixture 7

text: Norwegian coastal

characteristic: breed

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

characteristic: isolate

text: Gadus morhua

characteristic: organism

text: Gadus morhua

text: liver

characteristic: organism part

text: Gadus morhua

text: male

text: Mixture 7


E-MTAB-12338:Mixture 8

text: public

text: E-MTAB-12338:Mixture 8

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

characteristic: developmental stage

text: normal

text: wild type genotype

characteristic: genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

characteristic: sex

text: Mixture 8

characteristic: title


E-MTAB-12338:Mixture 9

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-12338:Mixture 9

text: Norwegian coastal

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Gadus morhua

text: Gadus morhua

text: liver

text: Gadus morhua

text: male

text: Mixture 9


text: Metagenomics Data Analysis

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-06-12-2022-07:37:06:613-37429

tag: Namespace:Metagenomics Data Analysis

characteristic: Submitter Id

text: environmental system

characteristic: broad-scale environmental context

text: not collected

characteristic: collection date

unit: m

characteristic: depth

text: Natural forest soil

text: 2300 to 3000

characteristic: elevation

text: Plant matter

characteristic: environmental medium

text: Ethiopia

characteristic: geographic location (country and/or sea)

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: soil environment

characteristic: local environmental context

text: rhizosphere metagenome

characteristic: pH

text: Hanna multiparameter

characteristic: pH method

text: Three extracts were mixed

characteristic: pooling of DNA extracts (if done)

text: Ethiopia-Addis Ababa Science and Technology University-Bezayit-4 shotgun metagenomics 6Gb-wobi-Alicloud-AMEA2022092309

characteristic: project name

text: Soil cone cutter

characteristic: sample collection device

text: random sampling technique

characteristic: sample collection method

unit: g

characteristic: sample volume or weight for DNA extraction

text: rhizosphere metagenome

text: 31 sand 47 silt 27 clay

unit: % sand/silt/clay

characteristic: soil texture measurement

text: Hadro Method H152

characteristic: soil texture method

text: frozen for one month before extraction

characteristic: storage conditions (fresh/frozen/other)

unit: ºC

characteristic: temperature

text: Walkley-Black titration by TITREX 2000

characteristic: total organic C method

unit: g/kg

characteristic: total organic carbon


characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

text: Metagenomics Data Analysis

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ena-SAMPLE-TAB-06-12-2022-07:43:31:713-37431

characteristic: Submitter Id

text: environmental system

characteristic: broad-scale environmental context

text: not collected

characteristic: collection date

characteristic: depth

text: Natural forest soil

characteristic: description

text: 2300 to 3000

characteristic: elevation

text: Plant matter

characteristic: environmental medium

text: Ethiopia

characteristic: geographic location (country and/or sea)

text: soil environment

text: rhizosphere metagenome

characteristic: organism

text: Hanna multiparameter

text: Three extracts were mixed

text: Soil cone cutter

text: random sampling techniqe

text: rhizosphere metagenome

text: 29 sand 43 silt 28 clay

text: Hadro Method H152

text: frozen for one month before extraction

characteristic: title

text: Walkley-Black titration by TITREX 2000


characteristic: ENA first public

text: UNIVERSITY OF SZEGED

text: public

tag: Namespace:UNIVERSITY OF SZEGED

text: neuronal

text: Dr Zoltan Deim

text: rat glial tumor

text: newborn

text: Serbia

text: Kelebia

characteristic: geographic location (region and locality)

text: Sus crofa

characteristic: host scientific name

text: Prof Dr Zsolt Boldogkoi, University of Szeged, Dept of Medical Biology

text: GenomeID LT934125

characteristic: isolate

text: farm

text: 46.15402146071568, 19.57849685513246

text: Suid alphaherpesvirus 1

text: Suid alphaherpesvirus 1

text: PRV-MdBio

characteristic: strain

text: brain


characteristic: ENA-CHECKLIST

characteristic: External Id

text: UNIVERSITY OF SZEGED

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: neuronal

text: Dr Zoltan Deim

text: rat adrenal medulla

text: newborn

text: Serbia

text: Kelebia

text: Sus crofa

text: GenomeID LT934125

text: farm

text: 46.15402146071568, 19.57849685513246

text: Suid alphaherpesvirus 1

text: Suid alphaherpesvirus 1

text: PRV-MdBio

text: brain


text: UNIVERSITY OF SZEGED

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: neuronal

text: Dr Zoltan Deim

text: pig kidney

text: newborn

text: Serbia

text: Kelebia

text: Sus crofa

text: GenomeID LT934125

text: farm

text: 46.15402146071568, 19.57849685513246

text: Suid alphaherpesvirus 1

text: Suid alphaherpesvirus 1

text: PRV-MdBio

text: brain


text: UNIVERSITY OF SZEGED

text: public

text: Rabbit Kidney cell line (RK-13/35)

text: Equine herpesvirus 1

characteristic: common name

characteristic: description

text: phoetus

text: Hungary

text: Szilvasvarad, Marocpuszta, National Stud Farm

text: Equus ferus

text: foal

text: Equid alphaherpesvirus 1

text: Equid alphaherpesvirus 1


text: UNIVERSITY OF SZEGED

text: public

text: lung cancer

text: Varicella-zoster virus

text: Terminator treated

text: Homos sapiens

text: human

text: Human alphaherpesvirus 3

text: Human alphaherpesvirus 3


text: UNIVERSITY OF SZEGED

text: public

text: lung cancer

text: Varicella-zoster virus

text: Random primed

text: Homos sapiens

text: human

text: Human alphaherpesvirus 3

text: Human alphaherpesvirus 3


text: UNIVERSITY OF SZEGED

text: public

text: lung cancer

text: Varicella-zoster virus

text: Target primed

text: Homos sapiens

text: human

text: Human alphaherpesvirus 3

text: Human alphaherpesvirus 3


text: Department of Zoology

text: public

tag: Namespace:Department of Zoology

text: oral and vaginal microbiota

text: metagenome

text: metagenome

text: oral and vaginal microbiota


E-MTAB-13014:CellPlex iBMDMs (CML)

text: UNIVERSITY OF MANCHESTER

text: public

text: E-MTAB-13014:CellPlex iBMDMs (CML)

tag: Namespace:UNIVERSITY OF MANCHESTER

text: ArrayExpress

characteristic: broker name

text: BMDMs

text: macrophage

text: house mouse

text: Protocols: Fluorescence activated cell sorting (FACS) was used to sort single iBMDMs into prewarmed DMEM+FBS in 96 well plates and incubated to generate clonal populations. To reduce clumping during growth from single cells, cells were dispersed by gently reverse pipetting on days 5 and 8. When cells were 60-80% confluent (day 12-14) clonal populations were transferred to 6 well plates for subsequent experiments. Clonal or mixed populations in 6 well plates at approximately 50% confluence were stimulated with Lipid A at a final concentration of 500ng/ml for 3h. Cells were harvested by scraping and put on ice prior to tagging using the 10x genomics 3' CellPlex kit according to the manufacturer's instructions for >80% viable cells (protocol 1 document number CG000391). Gene expression and Cell Multiplexing libraries were prepared from Cell Multiplexing Oligo labelled cells using the Chromium Controller and Single Cell 3ʹ Reagent Kits v3.1 (10x Genomics, Inc. Pleasanton, USA) according to the manufacturer’s protocol (CG000388 Rev B). Briefly, nanoliter-scale Gel Beads-in-emulsion (GEMs) were generated by combining barcoded Gel Beads, a master mix containing cells, and partitioning oil onto a Chromium chip. Cells were delivered at a limiting dilution, such that the majority (90-99%) of generated GEMs contain no cell, while the remainder largely contain a single cell. The Gel Beads were then dissolved, primers released, and any co-partitioned cells lysed. Primers containing an Illumina TruSeq Read 1 sequencing primer, a 16-nucleotide 10x Barcode, a 12-nucleotide unique molecular identifier (UMI) and a 30-nucleotide poly(dT) sequence were then mixed with the cell lysate and a master mix containing reverse transcription (RT) reagents along with primers containing an Illumina Nextera Read 1, a 16-nucleotide 10x Barcode, a 12-nucleotide UMI and a capture sequence. Incubation of the GEMs yielded barcoded cDNA from poly-adenylated mRNA and barcoded DNA from the Cell Multiplexing Oligo Feature barcode. Following incubation, GEMs were broken and pooled fractions recovered. The cell barcoded cDNA was then purified from the post GEM-RT reaction mixture using silane magnetic beads and amplified via PCR to generate sufficient mass for library constructions. The amplified cDNA molecules for 3’ Gene Expression were separated from those for Cell Multiplexing library construction by size selection.For the 3’ Gene Expression library enzymatic fragmentation and size selection were then used to optimize the cDNA amplicon size. Illumina P5, P7, i7 & i5 sample indexes, and TruSeq Read 2 sequence were added via end repair, A-tailing, adaptor ligation, and PCR to yield final Illumina-compatible sequencing libraries.For the Cell Multiplexing library P5, P7, i7 & i5 sample indexes and Nextera Read 2 were added via PCR to amplified DNA from Cell Multiplexing Oligo Feature Barcodes to yield final Illumina-compatible sequencing libraries

text: wild type genotype

characteristic: genotype

text: not applicable

text: Mus musculus

text: Mus musculus

text: bone marrow

characteristic: organism part

text: multiplexing capture

characteristic: protocol

text: Mus musculus

text: female

characteristic: sex

text: CellPlex iBMDMs (CML)


E-MTAB-13014:CellPlex iBMDMs (GEX)

characteristic: ENA first public

text: UNIVERSITY OF MANCHESTER

text: public

text: E-MTAB-13014:CellPlex iBMDMs (GEX)

text: ArrayExpress

text: BMDMs

text: macrophage

text: house mouse

text: wild type genotype

text: not applicable

text: Mus musculus

characteristic: organism

text: Mus musculus

text: bone marrow

text: gene expression

text: Mus musculus

text: female

text: CellPlex iBMDMs (GEX)

characteristic: title


characteristic: ENA-CHECKLIST

text: ANLIS Malbran

text: public

tag: Namespace:ANLIS Malbran

text: ANLIS "Carlos G. Malbran"

characteristic: collecting institution

characteristic: collection date

characteristic: collector name

text: Argentina

characteristic: geographic location (country and/or sea)

text: Buenos Aires

characteristic: geographic location (region and locality)

unit: years

characteristic: host age

text: human

characteristic: host common name

text: not provided

characteristic: host health state

text: homo sapien

characteristic: host scientific name

text: male

characteristic: host sex

characteristic: host subject id

characteristic: isolate

text: Severe acute respiratory syndrome coronavirus 2

text: active surveillance in response to outbreak

characteristic: sample capture status


characteristic: ENA first public

characteristic: External Id

text: ANLIS Malbran

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ANLIS "Carlos G. Malbran"

characteristic: common name

text: Argentina

text: Catamarca

text: human

text: not provided

text: homo sapien

text: female


characteristic: ENA-CHECKLIST

text: ANLIS Malbran

text: public

text: ANLIS "Carlos G. Malbran"

characteristic: collecting institution

characteristic: collection date

characteristic: collector name

text: Argentina

characteristic: geographic location (country and/or sea)

text: Santa Fe

characteristic: geographic location (region and locality)

text: human

text: not provided

text: homo sapien

text: female

characteristic: organism

characteristic: title


text: ANLIS Malbran

text: public

text: ANLIS "Carlos G. Malbran"

text: Argentina

text: Santa Fe

text: human

characteristic: host common name

text: not provided

characteristic: host health state

text: homo sapien

characteristic: host scientific name

text: female

characteristic: host sex

characteristic: host subject id

characteristic: isolate

characteristic: sample capture status


characteristic: ENA first public

characteristic: External Id

text: ANLIS Malbran

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ANLIS "Carlos G. Malbran"

text: Argentina

text: San Luis

text: human

text: not provided

text: homo sapien

text: female


characteristic: ENA-CHECKLIST

text: ANLIS Malbran

text: public

text: ANLIS "Carlos G. Malbran"

characteristic: collecting institution

characteristic: collection date

characteristic: collector name

characteristic: common name

text: Argentina

characteristic: geographic location (country and/or sea)

text: La Rioja

characteristic: geographic location (region and locality)

characteristic: host age

text: human

text: not provided

text: homo sapien

text: female


text: ANLIS Malbran

text: public

text: ANLIS "Carlos G. Malbran"

text: Argentina

text: Santa Fe

text: human

characteristic: host common name

text: not provided

characteristic: host health state

text: homo sapien

characteristic: host scientific name

text: male

characteristic: host sex

characteristic: host subject id

characteristic: isolate

characteristic: organism

characteristic: title


characteristic: ENA first public

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Szentagothai Research Centre, University of Pecs

characteristic: Submitter Id

text: human

text: genomic DNA

characteristic: description

text: Hungary

text: Homo sapiens

text: Homo sapiens


characteristic: ENA-CHECKLIST

text: Free University of Bolzano

text: public

tag: Namespace:Free University of Bolzano

text: soil

characteristic: broad-scale environmental context

characteristic: collection date

text: soil

text: soil

characteristic: environmental medium

text: Italy

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Italy:Region of Apulia:Province of Foggia:Commune of Lucera

characteristic: geographic location (region and locality)

text: compost

characteristic: local environmental context

text: soil metagenome

text: The role of microplastic on ecosystem functioning: a focus on antibiotic resistance spread in input for agricultural purposes

characteristic: project name

text: soil metagenome


characteristic: ENA first public

characteristic: External Id

text: Free University of Bolzano

text: public

text: host-associated

text: feces

text: feces

text: Italy

text: animal-associated habitat

text: feces metagenome

characteristic: organism

text: feces metagenome

characteristic: title


text: Free University of Bolzano

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: sediment

text: sediment

text: sediment

text: Italy

text: Italy:Region of Apulia:Province of Barletta-Andria-Trani

text: river

text: sediment metagenome

text: sediment metagenome


characteristic: ENA-CHECKLIST

text: EURAC research

text: public

tag: Namespace:EURAC research

characteristic: Submitter Id

text: human

characteristic: common name

text: Copper Age individual from Eastern Italian Alps

characteristic: description

text: Italy

text: Homo sapiens

text: Homo sapiens


text: EURAC research

text: public

characteristic: collection date

text: human

text: Copper Age - early Bronze Age individual from Eastern Italian Alps

text: Italy

characteristic: geographic location (country and/or sea)

text: Homo sapiens

text: Homo sapiens


text: EURAC research

text: public

text: human

text: Bronze Age individual from Eastern Italian Alps

text: Italy

text: Homo sapiens

text: Homo sapiens


text: EURAC research

text: public

text: human

text: Early - middle Bronze Age individual from Eastern Italian Alps

text: Italy

text: Homo sapiens

text: Homo sapiens


text: EURAC research

text: public

text: human

text: Middle Bronze Age individual from Eastern Italian Alps

text: Italy

text: Homo sapiens

text: Homo sapiens


text: EURAC research

text: public

text: human

text: Mesolithic individual from Eastern Italian Alps

text: Italy

text: Homo sapiens

text: Homo sapiens


text: EURAC research

text: public

text: human

text: Middle Neolithic individual from Eastern Italian Alps

text: Italy

text: Homo sapiens

text: Homo sapiens


text: University of Cambridge

text: public

tag: Namespace:University of Cambridge

text: not provided

text: Nepal

text: Salmonella enterica subsp. enterica serovar Paratyphi A


R1, Start period 1 (ABS)

text: BRGM

text: public

text: R1, Start period 1 (ABS)

text: Pulp sampled in the reactor R1 for acidic iron oxidation, at the start of period 1 on ABS medium

text: Yes

text: France

text: Acidophilic bioreactor

text: bioreactor metagenome

text: bioreactor metagenome

text: Pulp from iron oxidation reactor R1, start of period 1 on ABS medium


R1, Start period 2 (0km)

text: BRGM

text: public

text: R1, Start period 2 (0km)

text: Pulp sampled in the reactor R1 for acidic iron oxidation, at start of period 2 on 0Km medium

text: Yes

text: France

text: Acidophilic bioreactor

text: bioreactor metagenome

text: bioreactor metagenome

text: Pulp from iron oxidation reactor R1, start of period 2 on 0Km medium


R2, End period 1 (ABS)

text: BRGM

text: public

text: R2, End period 1 (ABS)

text: Pulp sampled in the reactor R2 for iron bioreduction, at the end of period 1 on ABS medium

text: Yes

text: France

text: Acidophilic bioreactor

text: bioreactor metagenome

text: bioreactor metagenome

text: Pulp from bioreduction reactor R2, end of period 1 on ABS medium


R2, End period 2 (0km)

text: BRGM

text: public

text: R2, End period 2 (0km)

text: Pulp sampled in the reactor R2 bioreduction, at the end of period 2 on 0Km medium

text: Yes

text: France

text: Acidophilic bioreactor

text: bioreactor metagenome

text: bioreactor metagenome

text: Pulp from bioreduction reactor R2, end of period 2 on 0Km medium


text: public

tag: Namespace:Centre of New Technologies University of Warsaw

text: short-tailed field vole

text: CheremUnited Kingdomhovo 1

text: Russia

text: 60.400, 60.057

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: Centre of New Technologies University of Warsaw

text: public

text: short-tailed field vole

text: CheremUnited Kingdomhovo 1

text: Russia

text: 60.400, 60.057

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Mironovskaya III

text: Russia

text: 57.483, 61.717

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Pershinskaya 1

text: Russia

text: 57.450, 61.449

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Obłazowa (WE)

text: Poland

text: 49.428, 20.126

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Nad Tunelem cave

text: Poland

text: 50.199, 19.832

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Krucza Skała

text: Poland

text: 50.573, 19.524

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Shelter III in Smoleń

text: Poland

text: 50.434, 19.674

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Perspektywiczna cave

text: Poland

text: 50.424, 19.781

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Mamutowa Cave

text: Poland

text: 50.170, 19.806

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Deszczowa

text: Poland

text: 50.588, 19.543

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Żarska cave

text: Poland

text: 49.877, 22.224

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Muráň 3

text: Slovakia

text: 49.251, 20.174

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Rasik

text: Russia

text: 59.040, 57.330

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Dzeravá skala

text: Slovakia

text: 48.497, 17.325

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Artazu VII

text: Spain

text: 43.138, -2.380

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Bišilu

text: Czech Republic

text: 49.948, 14.106

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: El Mirón

text: Spain

text: 43.250, -3.460

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Obłazowa 2

text: Poland

text: 49.428, 20.126

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Cisowa Rock

text: Poland

text: 49.433, 20.101

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Petenyi Cave

text: Hungary

text: 47.363, 18.283

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Rejtek III

text: Hungary

text: 48.035, 20.334

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Caverna degli Orsi

text: Italy

text: 45.604, 13.867

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Grotta della Ferrovia

text: Italy

text: 42.693, 12.651

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Eirós

text: Spain

text: 42.765, -7.208

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Łabajowa

text: Poland

text: 50.191, 19.773

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Sedrup Farm

text: United Kingdom

text: 51.796, -0.844

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: De Nadale Cave

text: Italy

text: 45.411, 11.470

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Cava a Filo

text: Italy

text: 44.443, 11.380

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Býčí

text: Czech Republic

text: 49.307, 16.694

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Grotta del Sambuco

text: Italy

text: 43.037, 10.953

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: El Portalón

text: Spain

text: 42.366, -3.522

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Valdavara 1

text: Spain

text: 42.853, -7.161

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Shelter III in Smoleń

text: Poland

text: 50.434, 19.674

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Białowieża

text: Poland

text: 52.70; 23.91

text: Microtus agrestis

text: Microtus agrestis

text: n.a.

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Bory Tucholskie

text: Poland

text: 53.67; 18.24

text: Microtus agrestis

text: Microtus agrestis

text: n.a.

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Urwitałt

text: Poland

text: 53.80; 21.64

text: Microtus agrestis

text: Microtus agrestis

text: n.a.

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Sennalandet

text: Norway

text: 70.28; 24.08

text: Microtus agrestis

text: Microtus agrestis

text: n.a.

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Ekse

text: Norway

text: 60.83; 6.24

text: Microtus agrestis

text: Microtus agrestis

text: n.a.

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Briansk

text: Russia

text: 53.36; 34.39

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Novgorod Region, Demyansk town

text: Russia

text: 57.37; 32.27

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Irkutsk Region, Baikal Lake

text: Russia

text: 52.06; 105.23

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Bretagne

text: France

text: 48.65; -2.03

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Inverness

text: United Kingdom

text: 56.93; -5.87

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: North Uist

text: United Kingdom

text: 57.52; -7.32

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Lincolnshire

text: United Kingdom

text: 53.53; -0.82

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Warwickshire

text: United Kingdom

text: 52.39; -1.56

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Hampshire

text: United Kingdom

text: 51.08; -1.24

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Wojsław

text: Poland

text: 50.72; 17.35

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Ruda Różaniecka

text: Poland

text: 50.32; 23.18

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Kuźnia Raciborska

text: Poland

text: 50.21; 18.37

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Dyrdy

text: Poland

text: 50.57; 18.99

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Sarmellek

text: Hungary

text: 46.42; 17.11

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Kaluga Region, Nogaya

text: Russia

text: 53.33; 35.44

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Ivano-Frankovsk

text: Ukraine

text: 48.87; 24.76

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Tver Region, Bubonitsy village

text: Russia

text: 56.43; 31.00

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Calimani Mountains - Reţitiş Peak

text: Romania

text: 47.10; 25.23

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Calimani Mountains - under Pietrele Rosii Peak

text: Romania

text: 47.20; 25.20

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Chernobyl district

text: Ukraine

text: 51.27; 30.18

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Nogaya

text: Russia

text: 53.56; 35.74

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Picos de Europa

text: Spain

text: 43.11; -5.00

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Burgos

text: Spain

text: 42.31; -3.27

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Ust-Ilimsk

text: Russia

text: 57.99; 102.75

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Tertera Pas Casa

text: Andorra

text: 42.58; 1.65

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Vasterbotten

text: Sweden

text: 64.77; 17.20

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Sweden

text: 62.23; 15.45

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Makuberget

text: Sweden

text: 67.17; 20.64

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Barszyna

text: Poland

text: n.a.

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Tirol

text: Austria

text: 47.50; 12.45

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Frankenstein

text: Germany

text: 49.79; 8.670

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Dalsland

text: Sweden

text: 58.99; 12.38

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Viseu

text: Portugal

text: 40.82; -8.14

text: Microtus agrestis

text: Microtus agrestis

text: 5M.CE.84 (CE2)

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Vila Real

text: Portugal

text: 41.54; -7.53

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Guarda

text: Portugal

text: 40.57; -7.23

text: Microtus agrestis

text: Microtus agrestis

text: SM.SE.199 (QM11)

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Viana do Castelo

text: Portugal

text: 41.64; -8.54

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Kis Balaton

text: Hungary

text: 46.625596; 17.154016

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Kondorfa

text: Hungary

text: 46.892412; 16.392251

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Ábrahámhegy

text: Hungary

text: 46.814284; 17.553151

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Nova

text: Hungary

text: 46.691943; 16.674990

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Őriszentpéter

text: Hungary

text: 46.845403; 16.404067

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

text: short-tailed field vole

text: Lipótfa

text: Hungary

text: 46.282273; 17.669459

text: Microtus agrestis

text: Microtus agrestis

text: Microtus agrestis


text: public

tag: Namespace:Department of Agriculture, Food, Environment and Forestry (DAGRI), University of Florence, Italy

unit: day

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

text: chickpea

text: Blanco lechoso

characteristic: cultivar

text: Protocols: Axillary and apical buds were collected separately from at least 15 plants randomized per biological replicate after 20 days of transplanting and the samples were kept in liquid nitrogen. Seeds of the chickpea and lentil cultivars were superficially sterilized with 1.5% sodium hypochlorite solution for 1 minute, washed abundantly with distilled water, soaked for 3 minutes in distilled water, and germinated in Petri plates containing humid filter paper during three days at room temperature. The germinated seeds with a 1-2 cm radicle were transferred to pots containing commercial substrate and kept well-watered and fertilized under greenhouse conditions. Frozen tissues (50-100 mg) were ground to a fine powder with a mortar and pestle using liquid nitrogen. The total RNA was purified with GenUP™ Total RNA Kit (Biotechrabbit, Volmerstraße, Berlin, Germany). The RNA integrity was checked in through agarose electrophoresis, while the concentration of total RNA was measured using a Qubit 4 Fluorometer and appropriate Qubit kit (Invitrogen, Waltham, Massachusetts, USA). The purity and integrity of RNA were confirmed by the Agilent Bioanalyser 2100 system (RNA 6000 Nano Kit, Agilent Technologies, Santa Clara, CA, USA). Twenty-four sequencing libraries were prepared using Truseq Stranded mRNA Library Prep and Truseq RNA Single Indexes (Illumina, San Diego, CA, USA) following the manufacturer's instructions. A unique dual index combination was used for each sample/library for barcoding. The concentration of each of the 24 libraries was determined using the Qubit 4 Fluorometer and the dsDNA High Sensitivity Kit (Invitrogen).

text: seedling development stage

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: not collected

text: not applicable

characteristic: isolate

text: Cicer arietinum

text: Cicer arietinum

text: Apical bud

characteristic: organism part

text: Cicer arietinum


characteristic: ENA first public

characteristic: External Id

text: Department of Agriculture, Food, Environment and Forestry (DAGRI), University of Florence, Italy

characteristic: INSDC center name

text: public

text: ArrayExpress

text: not collected

text: chickpea

text: Blanco lechoso

text: seedling development stage

text: wild type genotype

text: not collected

text: not applicable

text: Cicer arietinum

characteristic: organism

text: Cicer arietinum

text: Apical bud

text: Cicer arietinum

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: not collected

text: chickpea

text: Blanco lechoso

text: seedling development stage

text: wild type genotype

text: not collected

text: not applicable

text: Cicer arietinum

text: Cicer arietinum

text: Axilary bud

text: Cicer arietinum


text: public

characteristic: age

text: ArrayExpress

text: not collected

characteristic: collection date

text: lentil

characteristic: common name

text: Campisi

characteristic: description

text: seedling development stage

text: wild type genotype

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Lens culinaris

text: Lens culinaris

text: Apical bud

text: Lens culinaris


text: public

text: ArrayExpress

characteristic: broker name

text: not collected

text: lentil

text: Campisi

characteristic: cultivar

text: seedling development stage

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: not collected

text: not applicable

characteristic: isolate

text: Lens culinaris

text: Lens culinaris

text: Axilary bud

text: Lens culinaris


characteristic: ENA first public

characteristic: External Id

characteristic: INSDC center name

text: public

text: ArrayExpress

text: not collected

text: lentil

text: Castellana

text: seedling development stage

text: wild type genotype

text: not collected

text: not applicable

text: Lens culinaris

characteristic: organism

text: Lens culinaris

text: Apical bud

characteristic: organism part

text: Lens culinaris


characteristic: ENA-CHECKLIST

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: not collected

text: lentil

text: Castellana

text: seedling development stage

text: wild type genotype

text: not collected

text: not applicable

text: Lens culinaris

text: Lens culinaris

text: Axilary bud

text: Lens culinaris

characteristic: title


text: public

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

text: not collected

characteristic: collection date

text: chickpea

characteristic: common name

characteristic: description

text: seedling development stage

text: wild type genotype

text: not collected

text: not applicable

text: Cicer arietinum

text: Cicer arietinum

text: Apical bud

text: Cicer arietinum


text: public

text: ArrayExpress

characteristic: broker name

text: not collected

text: chickpea

characteristic: cultivar

text: seedling development stage

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Cicer arietinum

text: Cicer arietinum

text: Axilary bud

text: Cicer arietinum


characteristic: ENA first public

characteristic: External Id

characteristic: INSDC center name

text: public

text: short-tailed field vole

text: Portugal

text: Bragança

text: 41.59875; -7.00299

text: Microtus agrestis

characteristic: organism

text: Microtus agrestis

text: Microtus agrestis


characteristic: ENA-CHECKLIST

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Poland

text: Kasprowy Wierch

text: 49.231; 19.981

text: Microtus tatricus

text: Microtus tatricus

text: Microtus tatricus


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: social vole

text: Iran

text: Soltanieh

text: 36.4325, 48.7930

text: Microtus socialis

text: Microtus socialis

text: Microtus socialis

characteristic: title


text: public

characteristic: collection date

text: Common pine vole

characteristic: common name

text: Czech Republic

text: Brno

text: 49.194553; 16.607312

text: Microtus subterraneus

text: Microtus subterraneus

text: Microtus subterraneus


E-MTAB-13687:CITEseq Multiplex 4_CSP

text: CNAG-CRG

text: public

text: E-MTAB-13687:CITEseq Multiplex 4_CSP

text: Multiplexed

characteristic: age

text: ArrayExpress

characteristic: broker name

text: All

text: discovery

characteristic: cohort

text: not collected

text: human

text: Protocols: We divided the sample collection into two cohorts: the discovery cohort (which we used to cluster cells, annotate cell types and identify bona-fide markers), and the validation cohort (which we used to validate cell types and markers). For the discovery cohort, we obtained ten tonsil samples from donors from three different age groups, i.e., six children (age 3-5; 3 males and 3 females; recurrent tonsillitis), three young adults (age 26-35; all male; sleep apnea) and one old adult (age 65; male, tonsil removed during surgery for benign pharyngeal squamous papillomatosis (Figure 1A and Table S1). Out of the ten tonsils, eight were obtained in Clinica Universidad de Navarra (Pamplona, Spain; all kids and 2 young adults) and two at Hospital Clinic Barcelona (Barcelona, Spain; one young and one old adult). All donors or legal guardians gave informed consent for their participation in this study, which was approved by the clinical research ethics committee of Clínica Universidad de Navarra and by the clinical research ethics committee of the Hospital Clinic of Barcelona (HCB/2018/0992). For the validation cohort, we obtained four tonsils from young adults undergoing elective tonsillectomies for recurrent tonsillitis at Newcastle Upon Tyne Hospitals NHS Foundation Trust (United Kingdom). All donors provided written informed consent for study participation, which was approved by the West of Scotland Research Ethics Service (22/WS/0126). Furthermore, the validation cohort included one young adult (age 25; female; recurrent tonsillitis) and two old adults (age 56, 63; both males; sleep apnea and tonsil removed during surgery for superficial squamous carcinoma of the laryngeal vocal cord) sampled at Hospital Clinic after giving their informed consents.All tonsil samples from the discovery and validation cohorts were reviewed at the Hematopathology Unit of Hospital Clinic of Barcelona and showed reactive follicular hyperplasia with several degrees of germinal center expansions. No atypical cells in the epithelium, stroma or lymphoid compartments were seen in the cases including the two tonsils (BCLL-2-T and BCLL-24-T; Table S1) that were extracted in the course of a surgery intervention for benign pharyngeal squamous papillomatosis and superficial squamous carcinoma of vocal cord, respectively.Tonsil tissues were split into three parts that were processed as follows: (1) first part was paraffin embedded to create FFPE blocks, according to standard pathology protocols; (2) second part was snap frozen to obtain OCT blocks, according to standard protocols, and (3) the remaining third part was processed to obtain a single-cell suspension, following the steps described below. Tonsils were first disaggregated by extensive manual mincing and filtered by 70 μm (samples from CIMA and Hospital Clinic) or 100 μm (samples from Newcastle Upone Tyne Hospitals) nylon strainer. In case non- disaggregated parts of tissue were still present, the samples were further dissociated by gentle MACS Dissociator (program tumor 04.01). The number and viability of cells was evaluated. All steps were performed at 4oC or on ice. Cells were either processed directly for single-cell sequencing (scRNA-seq, scATAC-seq, CITE-seq, or Multiome) or cryopreserved for later use.For the final part of the study, cryopreserved cells from tonsil samples of two mantle cell lymphoma (MCL) patients were used (age 64 and 80, both male). Informed consents were obtained according to the Institutional Review Board of the Hospital Clínic of Barcelona following the International Cancer Genome Consortium guidelines. MCL samples were obtained from cryopreserved dissociated cells from tonsils, from the ICGC case collection of Hospital Clinic, Barcelona. After thawing in culture medium supplemented with 20% FBS, the CD19 positive B cell fraction and CD19 negative non-B cell fraction were isolated by magnetic cell separation using CD19-MicroBeads MACS separation system protocol (Miltenyi Biotec, Auburn, CA). Separation steps were performed at 4oC. Both fractions were directly processed for Multiome library preparation and sequenced separately. See nucleic acid library construction protocol for a detailed description of the full protocol from sample extraction, nuclei acid extraction and library preparation. 3’ scRNA-seq and Cell hashing (Hospital Clinic and CIMA) Freshly isolated cells from tonsils were subjected to a Cell Hashing 26 protocol before proceeding to scRNA-seq. Cell hashing was performed following manufacturer’s instructions (Cell hashing and Single Cell Proteogenomics Protocol Using TotalSeqTM Antibodies; BioLegend). Cells were counted with a TC20TM Automated Cell Counter (Bio-Rad Laboratories, S.A), and 50,000 unlabeled cells were saved in a separate tube before proceeding with the cell hashing protocol. Each sample was split into seven aliquots with equal numbers of cells. Briefly, each aliquot was resuspended in Cell Staining Buffer (BioLegend), incubated for 10 min at 4°C with Human TruStain FcXTM Fc Blocking reagent (BioLegend). To each aliquot, a specific TotalSeq-A antibody-oligo conjugate (Table S21) was added and incubated on ice for 30 min. Cells were then washed three times with cold PBS+0.05% BSA (ThermoFisher) and centrifuged for 5 min at 500 rcf at 4°C. Finally, cells were resuspended in an appropriate volume of PBS+0.05% BSA to obtain a final cell concentration >1000 cells/μl, suitable for scRNA-seq. Assuming a 50% loss of cells in all tubes, an equal volume of hashed cell suspension from each of the seven aliquots was mixed and filtered with a 40 μm strainer. Cell concentration was verified with a TC20TM Automated Cell Counter (Bio-Rad Laboratories, S.A) upon cell staining with Trypan Blue. Cells were partitioned into Gel Beads-in-emulsion (GEMs) by using the Chromium Controller system (10X Genomics). Each sample was loaded into two channels with a target recovery of 20,000 cells per channel, for a total final recovery of 40,000 cells per sample. To assess the potential effects of cell hashing on gene expression and cell type composition, we additionally added non-hashed cells as a control (TR=5,000 cells). cDNA sequencing libraries were prepared using the Next GEM Single Cell 3’ Reagent Kits v3.1 (10X Genomics, PN-1000121), with some adaptations for Cell hashing, as indicated in TotalSeqTM-A antibodies and Cell Hashing with 10X Single Cell 3' Reagent Kit v3 3.1 protocol by BioLegend. Briefly, 1 μl of 0.2 μM hashtag oligonucleotides (HTO) primer (Integrated DNA Technologies, IDT) was added to the cDNA amplification reaction to amplify the HTO together with the full-length cDNAs. A SPRI selection clean up was done to separate mRNA-derived cDNA (>300 bp) from antibody-oligo-derived cDNA (<180 bp), as described in the above-mentioned protocol form BioLegend. Gene Expression (GEX) libraries were prepared following 10X Genomics single-cell 3’ mRNA kit protocol, while HTO DNAs were indexed by PCR as follows. 5 μl of purified HTO DNA were mixed with 2.5 μl of 10 μM Illumina TruSeq D70X_s primer (IDT) carrying a different i7 index for each sample (Table S22), 2.5 μl of SI primer from 10X single-cell 3’ mRNA kit, 50 μl of 2 X KAPA HiFi PCR Master Mix (KAPA Biosystem) and 40 μl of nuclease-free water. The reaction was carried out using the following thermal cycling conditions: 98°C for 2 min (initial denaturation), 12 cycles of 98°C for 20 seconds, 64°C for 30 seconds, 72°C for 20 seconds, and a final extension at 72°C for 5 min. The HTO libraries were purified by adding 1.2 X SPRI select reagent to the PCR reaction, incubating 5 min at room temperature (RT) and removing the supernatant after capturing the beads with a magnet. Samples were washed two times with 80% ethanol and elution was performed by adding 40.5 μl of nuclease-free water to the beads. Size distribution and concentration of full-length cDNA and HTO libraries were verified on an Agilent Bioanalyzer High Sensitivity chip (Agilent Technologies). Finally, sequencing of HTO and GEX libraries was carried out on a NovaSeq 6000 sequencer (Illumina) using the following sequencing conditions: 28 bp (Read 1) + 8 bp (i7 index) + 0 bp (i5 index) + 89 bp (Read 2), to obtain approximately 2,000 and >20,000 paired-end reads per HTO and cell, respectively. 3’ scRNA-seq (Newcastle Upon Tyne Hospitals) Fresh cells obtained by FACS sorting were counted, and resuspended in the appropriate volume of PBS to obtain a final cell concentration of 1000 cells/μl for scRNA-seq. Each fresh sample was loaded into two channels of a chromium controller system (10X Genomics) for partitioning into gel beads-in- emulsion (GEMs), with a target recovery of 10,000 cells per channel and 20,000 cells per sample. cDNA libraries were prepared using the Next GEM Single Cell 3’ Reagent Kits v3.1 (10X Genomics, PN- 1000121). Gene expression (GEX) libraries were prepared according to the 10X Genomics single-cell 3’ mRNA kit protocol. Size distribution and concentration of full-length cDNA libraries were quality controlled using a 4200 TapeStation System (Aligent Technologies). GEX libraries were sequenced using a NovaSeq 6000 (Illumina) using the following sequencing conditions: 28 bp (Read 1) + 10 bp (i7 index) + 10 (i5 index) + 90 bp (Read 2) to obtain approximately 25,000 paired-end reads per cell. scATAC-seq Cryopreserved samples were rapidly thawed in a 37oC water bath and transferred to a 15 ml Falcon using a 1000 μl wide bore tip. Next, 1 ml of 37oC pre-warmed Hibernate-A media supplemented with 10% FBS (Thermo Fisher Scientific) was added dropwise while gently swirling the sample. After 1 min RT incubation, 2 ml of pre-warmed media were added as mentioned before. Samples were again incubated at RT for 1 min and then additional media was added to bring the volume to 15 ml. Samples were centrifuged at 500 x g for 5 min at RT. Supernatant was removed and pellets resuspended in 10 ml of 1X PBS (Thermo Fisher Scientific) supplemented with 1% BSA. Samples were filtered with a 40 μm cell strainer to remove clumps. Cell number and viability were verified with a TC20TM Automated Cell Counter (Bio-Rad). Dead cells were removed by FACS sorting DAPI negative cells using a FACSAriaTM Fusion Flow Cytometer (BD Biosciences). To determine potential biases introduced by cell sorting, unsorted cells from 4 out of 10 samples were used for scATAC-seq analysis and compared with corresponding sorted samples. Nuclei isolation was performed following the “Nuclei Isolation for Single Cell ATAC Sequencing” demonstrated protocol (10X Genomics; CG000169) starting from 1 million cells per sample and incubating on ice for 3 min for cell lysis. Based on the starting number of cells and assuming a 50% loss during the procedure, nuclei were resuspended into the appropriate volume of chilled Diluted Nuclei Buffer (10x Genomics) to achieve a nuclei concentration of 925-2300 nuclei/μl, suitable for a Target Nuclei Recovery of 5,000 nuclei per sample. The resulting nuclei concentration was determined by manual counting using a Neubauer chamber upon staining with Trypan Blue. scATAC-seq libraries were prepared according to the Chromium Single Cell ATAC Reagent Kits v1.1 User Guide (10x Genomics; CG000209 Rev D). Transposed nuclei were partitioned into GEMs by using the Chromium Controller with Chip H for a target recovery of 5000 nuclei per sample. For samples used to assess potential artifacts due to FACS sorting, nuclei obtained from sorted and unsorted cells were loaded on separate channels of the same chip and parallelly processed for library preparation. After linear amplification, the resulting DNA was purified by sequential Dynabeads and SPRIselect reagent beads clean-ups. Libraries were indexed by PCR using the Single Index Kit N Set A (10X Genomics, PN-1000212) applying 10 cycles of amplification. Sequencing libraries were subjected to a final bead clean-up SPRIselect reagent and quantified on an Agilent Bioanalyzer High Sensitivity chip (Agilent Technologies). Finally, libraries were loaded on an Illumina NovaSeq 6000 with the following sequencing conditions: 50 bp (Read 1N) + 8 bp (i7 Index) + 16 bp (i5 Index) + 49 bp (Read 2N), aiming at a sequencing depth of >25,000 reads/nucleus. Single cell RNA and chromatin accessibility profiling Cryopreserved cells were thawed and cleaned from dead cells as described before (see scATAC-seq). Nuclei isolation was performed following the “Nuclei Isolation for Single Cell Multiome ATAC + Gene Expression Sequencing'' demonstrated protocol (10x Genomics; CG000365) starting from 0.5-1 M cells per sample and incubating on ice during 3 min for cell lysis. Nuclei were resuspended into the appropriate volume of chilled Diluted Nuclei Buffer (10X Genomics) to achieve a nuclei concentration of 925-2,300 nuclei/μl, suitable for a Target Nuclei Recovery of 7,000 per sample. The resulting nuclei concentration was determined by manual counting using a Neubauer chamber upon staining with Trypan Blue. GEX and ATAC-seq libraries were prepared following the Chromium Next GEM Single Cell Multiome ATAC + Gene Expression User Guide (10X Genomics; CG000338). Transposed nuclei were partitioned into GEMs by using the Chromium Controller with Chip J aiming at a target recovery of 7,000 nuclei per sample. After GEMs incubation for mRNA reverse transcription and transposed DNA barcoding, the resulting cDNA and barcoded gDNA were purified and pre-amplified during 7 cycles, following the 10X Genomics protocol. After a clean-up, 35 μl of the pre-amplified cDNA were amplified with 7 additional PCR cycles. The resulting cDNA was quantified on an Agilent Bioanalyzer High Sensitivity chip (Agilent Technologies) and 100 ng were used for library preparation. GEX libraries were indexed with 13 cycles of amplification using the Dual Index Plate TT Set A (10X Genomics; PN-3000431). In parallel, 40 μl of the pre-amplified DNA were indexed with 7 cycles of amplification using the Sample Index N Set A (10X Genomics; PN 3000427). Size distribution and concentration of full-length GEX and ATAC-seq libraries were verified on an Agilent Bioanalyzer High Sensitivity chip (Agilent Technologies). Finally, sequencing of GEX libraries was carried out on a NovaSeq 6000 sequencer (Illumina) using the following sequencing conditions: 28 bp (Read 1) + 8 bp (i7 index) + 0 bp (i5 index) + 89 bp (Read 2), to obtain approximately >20,000 paired-end reads per cell. ATAC-seq libraries were also sequenced with a NovaSeq 6000 sequencer (Illumina) using the following conditions: 50 bp (Read 1N) + 8 bp (i7 Index) + 16 bp (i5 Index) + 49 bp (Read 2N), aiming at a sequencing depth of >25,000 reads/nucleus. CITE-Seq Cryopreserved cells were thawed and FACS-sorted as previously described (see scATAC-seq and 3’ Single Cell RNA sequencing). For CITE-Seq experiments, samples were processed separately or processed in pools (subsequent demultiplexing by genotypes) before cell labeling with a custom panel of 192 oligo-barcoded antibodies (TotalSeq-C Custom Human Panel, Biolegend), following the same staining protocol of for Cell Hashing (see 3’ Single Cell RNA sequencing). Antibody details are included in Tables S23 and S24. Cells were loaded on the 10X Chromium Controller using the Next GEM Single Cell V(D)J Reagent Kits v1.1 with Feature Barcoding technology (10X Genomics, CG00208) according to manufacturer’s instructions. Each sample was loaded in duplicate for a total target recovery of 5,000 cells (20,000 for sample pools). After GEM dissolution and Dynabeads purification, 15 PCR cycles were done using the SC5ʹ Feature cDNA Primers (PN-1000080) to amplify the DNA from cell surface protein Feature Barcode oligos together with the full-length cDNA. The two products were separated by size selection and used for generating the different types of libraries. To construct the GEX library, the amplified full-length cDNA was fragmented, end repaired, A-tailed, and sample indexed using the Chromium Single Cell 5’ Library Construction Kit (10X Genomics, PN-1000020). For the V(D)J library, human T and B cell V(D)J sequences were enriched from the amplified cDNA with the Chromium Single Cell V(D)J Enrichment Kits (PN-1000005 and PN-1000016 for T and B cells respectively) followed by fragmentation, end repairing, A-tailing and sample indexing. Finally, the cell surface protein (CSP) library was generated from the amplified DNA from cell surface protein Feature Barcode by one-step PCR amplification using the Chromium Single Cell 5' Feature Barcode Library Kit (PN-1000080). Quantification and fragment size distribution of cDNAs and final libraries were determined using the Agilent 2100 BioAnalyzer High Sensitivity DNA kit (Agilent Technologies). All constructs were sequenced together on a Novaseq 6000 (Illumina), targeting a median sequencing depth of 20,000 (GEX), 2,000 (VDJ) and 8,000 (CSP) reads per cell. Spatial Transcriptomics (Visium OCT) Spatial visualization of gene expression within tonsil tissue was conducted using the Visium Spatial Gene Expression kit (10X Genomics) as per manufacturer's protocol. The OCT blocks were cut twice using a cryostat (Leica CM1950): a first time to assess RNA quality and assure a minimum RNA Integrity Number (RIN) number of 7 (RNA pico Chip) and a second time to mount a 10 μm section on the Visium slides. Slides were H&E stained before the sections were imaged using the NanoZoomer S60 (Hamamatsu) to assess tissue morphology and quality. The sections were then permeabilized for 6 min, according to the results of a corresponding Tissue Optimization experiment (10X Genomics, CG000238), and processed according to the Visium Spatial Gene Expression user guide (10X Genomics, CG000239). In short, tissue was lysed and reverse transcription was performed followed by second strand synthesis and cDNA denaturation. Spatially barcoded, full length cDNAs were amplified by PCR for 16 or 18 cycles, depending on the initial concentration previously determined by qPCR. Indexed sequencing libraries were generated via end repair, A-tailing, adaptor ligation and sample index PCR and analyzed using the Agilent 2100 BioAnalyzer. Libraries were sequenced on an Illumina NovaSeq 6000 with sequencing depth of ~100,000 reads per spot.

characteristic: description

text: Multiplexed

text: Multiplexed

characteristic: disease

text: Multiplexed

characteristic: donorid

text: not collected

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

characteristic: organism part

text: CITE-seq

characteristic: protocol

text: Homo sapiens

text: Multiplexed

characteristic: sex

text: CITEseq Multiplex 4_CSP


E-MTAB-13687:CITEseq Multiplex 4_GEX

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

text: CNAG-CRG

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: E-MTAB-13687:CITEseq Multiplex 4_GEX

text: Multiplexed

text: ArrayExpress

text: All

text: discovery

text: not collected

text: human

text: Multiplexed

characteristic: developmental stage

text: Multiplexed

text: Multiplexed

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: palatine tonsil

text: CITE-seq

text: Homo sapiens

text: Multiplexed

text: CITEseq Multiplex 4_GEX


E-MTAB-13687:CITEseq Multiplex 4_TCR

text: CNAG-CRG

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13687:CITEseq Multiplex 4_TCR

characteristic: Submitter Id

text: Multiplexed

characteristic: age

text: ArrayExpress

characteristic: broker name

text: All

text: discovery

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: Multiplexed

text: Multiplexed

text: Multiplexed

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

text: CITE-seq

text: Homo sapiens

text: Multiplexed

text: CITEseq Multiplex 4_TCR

characteristic: title


E-MTAB-13687:CITEseq Sample 1_CSP

text: CNAG-CRG

text: public

text: E-MTAB-13687:CITEseq Sample 1_CSP

unit: year

text: ArrayExpress

text: All

text: discovery

characteristic: cohort

text: not collected

text: human

characteristic: description

text: adult

text: sleep apnea

characteristic: disease

characteristic: donorid

text: not collected

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

characteristic: organism part

text: CITE-seq

characteristic: protocol

text: Homo sapiens

text: male

characteristic: sex

text: CITEseq Sample 1_CSP


E-MTAB-13687:CITEseq Sample 1_GEX

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

text: CNAG-CRG

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: E-MTAB-13687:CITEseq Sample 1_GEX

text: ArrayExpress

text: All

text: discovery

text: not collected

text: human

text: adult

characteristic: developmental stage

text: sleep apnea

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: palatine tonsil

text: CITE-seq

text: Homo sapiens

text: male

text: CITEseq Sample 1_GEX


E-MTAB-13687:CITEseq Sample 1_TCR

text: CNAG-CRG

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13687:CITEseq Sample 1_TCR

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: All

text: discovery

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: adult

text: sleep apnea

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

text: CITE-seq

text: Homo sapiens

text: male

text: CITEseq Sample 1_TCR

characteristic: title


E-MTAB-13687:CITEseq Sample 2_CSP

text: CNAG-CRG

text: public

text: E-MTAB-13687:CITEseq Sample 2_CSP

text: ArrayExpress

text: All

text: discovery

characteristic: cohort

text: not collected

text: human

characteristic: description

text: adult

text: tonsillitis

characteristic: disease

characteristic: donorid

text: not collected

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

characteristic: organism part

text: CITE-seq

characteristic: protocol

text: Homo sapiens

text: male

characteristic: sex

text: CITEseq Sample 2_CSP


E-MTAB-13687:CITEseq Sample 2_GEX

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

text: CNAG-CRG

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: E-MTAB-13687:CITEseq Sample 2_GEX

text: ArrayExpress

text: All

text: discovery

text: not collected

text: human

text: adult

characteristic: developmental stage

text: tonsillitis

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: palatine tonsil

text: CITE-seq

text: Homo sapiens

text: male

text: CITEseq Sample 2_GEX


E-MTAB-13687:CITEseq Sample 2_TCR

text: CNAG-CRG

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13687:CITEseq Sample 2_TCR

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: All

text: discovery

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: adult

text: tonsillitis

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

text: CITE-seq

text: Homo sapiens

text: male

text: CITEseq Sample 2_TCR

characteristic: title


E-MTAB-13687:CITEseq Sample 3_CSP

text: CNAG-CRG

text: public

text: E-MTAB-13687:CITEseq Sample 3_CSP

text: ArrayExpress

text: All

text: discovery

characteristic: cohort

text: not collected

text: human

characteristic: description

text: adult

text: tonsillitis

characteristic: disease

characteristic: donorid

text: not collected

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

characteristic: organism part

text: CITE-seq

characteristic: protocol

text: Homo sapiens

text: male

characteristic: sex

text: CITEseq Sample 3_CSP


E-MTAB-13687:CITEseq Sample 3_GEX

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

text: CNAG-CRG

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: E-MTAB-13687:CITEseq Sample 3_GEX

text: ArrayExpress

text: All

text: discovery

text: not collected

text: human

text: adult

characteristic: developmental stage

text: tonsillitis

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: palatine tonsil

text: CITE-seq

text: Homo sapiens

text: male

text: CITEseq Sample 3_GEX


E-MTAB-13687:CITEseq Sample 3_TCR

text: CNAG-CRG

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13687:CITEseq Sample 3_TCR

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: All

text: discovery

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: adult

text: tonsillitis

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

text: CITE-seq

text: Homo sapiens

text: male

text: CITEseq Sample 3_TCR

characteristic: title


E-MTAB-13687:MCL Sample 1_ATAC

text: CNAG-CRG

text: public

text: E-MTAB-13687:MCL Sample 1_ATAC

text: ArrayExpress

text: discovery

characteristic: cohort

text: not collected

text: human

characteristic: description

text: adult

text: tonsillitis

characteristic: disease

characteristic: donorid

text: not collected

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

characteristic: organism part

text: 10x 3' v3

characteristic: protocol

text: Homo sapiens

text: male

characteristic: sex

text: MCL Sample 1_ATAC


E-MTAB-13687:MCL Sample 2_ATAC

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

text: CNAG-CRG

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: E-MTAB-13687:MCL Sample 2_ATAC

text: ArrayExpress

text: discovery

text: not collected

text: human

text: adult

characteristic: developmental stage

text: tonsillitis

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: 10x 3' v3

text: Homo sapiens

text: male

text: MCL Sample 2_ATAC


E-MTAB-13687:Multiome Sample 1_RNA

text: CNAG-CRG

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13687:Multiome Sample 1_RNA

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: All

text: discovery

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: adult

text: sleep apnea

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

text: other

text: Homo sapiens

text: male

text: Multiome Sample 1_RNA

characteristic: title


E-MTAB-13687:Multiome Sample 2_ATAC

text: CNAG-CRG

text: public

text: E-MTAB-13687:Multiome Sample 2_ATAC

text: ArrayExpress

text: All

text: discovery

characteristic: cohort

text: not collected

text: human

characteristic: description

text: adult

text: sleep apnea

characteristic: disease

characteristic: donorid

text: not collected

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

characteristic: organism part

text: other

characteristic: protocol

text: Homo sapiens

text: male

characteristic: sex

text: Multiome Sample 2_ATAC


E-MTAB-13687:Multiome Sample 3_RNA

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

text: CNAG-CRG

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: E-MTAB-13687:Multiome Sample 3_RNA

text: ArrayExpress

text: All

text: discovery

text: not collected

text: human

text: adult

characteristic: developmental stage

text: surgery benign pharyngeal squamous papillomatosis

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: palatine tonsil

text: other

text: Homo sapiens

text: male

text: Multiome Sample 3_RNA


E-MTAB-13687:Multiome Sample 4_RNA

text: CNAG-CRG

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13687:Multiome Sample 4_RNA

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: All

text: validation

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: adult

text: tonsillitis

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

text: other

text: Homo sapiens

text: female

text: Multiome Sample 4_RNA

characteristic: title


E-MTAB-13687:Multiome Sample 5_RNA

text: CNAG-CRG

text: public

text: E-MTAB-13687:Multiome Sample 5_RNA

text: ArrayExpress

text: All

text: validation

characteristic: cohort

text: not collected

text: human

characteristic: description

text: adult

text: sleep apnea

characteristic: disease

characteristic: donorid

text: not collected

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

characteristic: organism part

text: other

characteristic: protocol

text: Homo sapiens

text: male

characteristic: sex

text: Multiome Sample 5_RNA


E-MTAB-13687:Multiome Sample 6_RNA

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

text: CNAG-CRG

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: E-MTAB-13687:Multiome Sample 6_RNA

text: ArrayExpress

text: All

text: discovery

text: not collected

text: human

text: adult

characteristic: developmental stage

text: tonsillitis

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: palatine tonsil

text: other

text: Homo sapiens

text: male

text: Multiome Sample 6_RNA


E-MTAB-13687:Multiome Sample 7_RNA

text: CNAG-CRG

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13687:Multiome Sample 7_RNA

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: All

text: discovery

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: adult

text: tonsillitis

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

text: other

text: Homo sapiens

text: male

text: Multiome Sample 7_RNA

characteristic: title


E-MTAB-13687:scRNA Sample 1_hashed_hto

text: CNAG-CRG

text: public

text: E-MTAB-13687:scRNA Sample 1_hashed_hto

text: ArrayExpress

text: All

text: discovery

characteristic: cohort

text: not collected

text: human

characteristic: description

text: juvenile stage

text: tonsillitis

characteristic: disease

characteristic: donorid

text: not collected

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

characteristic: organism part

text: 10x 3' v3

characteristic: protocol

text: Homo sapiens

text: male

characteristic: sex

text: scRNA Sample 1_hashed_hto


E-MTAB-13687:scRNA Sample 1_not_hashed

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

text: CNAG-CRG

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: E-MTAB-13687:scRNA Sample 1_not_hashed

text: ArrayExpress

text: All

text: discovery

text: not collected

text: human

text: juvenile stage

characteristic: developmental stage

text: tonsillitis

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: palatine tonsil

text: 10x 3' v3

text: Homo sapiens

text: male

text: scRNA Sample 1_not_hashed


E-MTAB-13687:scRNA Sample 11_hashed_hto

text: CNAG-CRG

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13687:scRNA Sample 11_hashed_hto

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: All

text: validation

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: adult

text: surgery for superficial squamous carcinoma of the laryngeal vocal cord

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

text: 10x 3' v3

text: Homo sapiens

text: male

text: scRNA Sample 11_hashed_hto

characteristic: title


E-MTAB-13687:scRNA Sample 12_hashed_hto

text: CNAG-CRG

text: public

text: E-MTAB-13687:scRNA Sample 12_hashed_hto

text: ArrayExpress

text: All

text: validation

characteristic: cohort

text: not collected

text: human

characteristic: description

text: adult

text: tonsillitis

characteristic: disease

characteristic: donorid

text: not collected

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: palatine tonsil

characteristic: organism part

text: 10x 3' v3

characteristic: protocol

text: Homo sapiens

text: female

characteristic: sex

text: scRNA Sample 12_hashed_hto